FvH4_5g32461

Retrotransposon gag protein

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb5
Physical Location & Seq
Reverse (-)
23429600 .. 23430962
1363 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_5g32461.t1

Sequence Viewer

Length: 1077 bp
ATGGTGGCAAACCTCACGAAGCAAAGACTTTTAACATCGTCAGGCAACTCGAGGAAACATTCTCCTTCGCCCACAACCAAAGTTGATTCGAAGATATGTCCACACTTGGAATTGCATCTTGACAATCAAATTGAAGCGATTCTAGAAGACGACTCTTGCGCCATGCAAGTCATGGTGATAGAAGTGATCAACATGGAAGAACAAGCGGCCCAAATAGCCCAGTTGACTGAAGCGGTGAAGAAGCTCCAAAAGACCATTGAAGAGAAGGATGTAGAAATTGCATCACTCATGGAGAAGCTAGAAGTTCACCACGACAATGACTCGGAGAATAACCTTCATGGCGATAAGAAAGACAAGTCTAGTGGATCATCTTCCGAGCAAAAAGGAGAATCAAATTCCATCCTAGCTTCATTGTTAGTTCAACAGCTTCAAGACATGATTGCCAAGACAATCAAAGCTCAATATGGTGGTTCGCCTCGAGATACACTAACGTATTCCAAGTCTTACACCAAGCGGCTAGACAATTTGAGAATGTCAACTGGCACGGAGTTTAAATGGTTTACAGACTTGGAGCCTGAATTCATTGACAGCTGGGAGCAAATGGAAAAGGAGTTCTTGAACCACTTCTTCAACACACGTCGCATGGTGAGTATGTTAGAGCTCACCAACACCAAACAACAAAATGGCGAGCCTGCTGTAGAGTTCATCAATCGTTGGCGTACACTAAGTCTCGACTGCAAAGACCGACTCTTAAAATTGTCAGCGAACCAGAGAATCAAGAGTCTTTGGCAATCAGTACAACTCCTGCAAGATCAAGCAAGGAGGCAAACTCTAAATGACTTGGAAGCTAAAAGTTACCCTTTTCCAGATTTCGATGTTGTTGAGATGTTGGAAAACTTGCTTGAAAAAGAACTAATCAAATTGCCAGACTGCAAGCGTCCAGAAGAGATGCATCGTGTCAATGATCCTAAGTATTACAAGTACCACCGTGTCATCGGTCATCCTGGAGAAGGGCTTCGTCTTGAAAGACCTCATCATGAAGCTAGCACAACAAGGAAAGATATGTTTAGATGTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families

Protein Analysis

359

Amino Acids

41.49

Weight (kDa)

6.0

Isoelectric Point (pI)

49.19

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Retrotrans_gag PF03732 185 - 250 1.2e-06 Retrotransposon gag protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready

Orthologous Genes (Group: OG0000128)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g28082 FvH4_2g15191 FvH4_2g31621 FvH4_3g07261 FvH4_3g22806 FvH4_3g26703 FvH4_3g26704 FvH4_3g31360 FvH4_4g01161 FvH4_4g22271 FvH4_4g25732 FvH4_5g00242 FvH4_5g28911 FvH4_5g32461 FvH4_6g13112 FvH4_6g53790 FvH4_6g53791 FvH4_7g03661 FvH4_7g04125 FvH4_7g04126
pyrus_communis pycom01g01950 pycom01g01960 pycom01g03260 pycom01g07760 pycom01g11430 pycom01g23980 pycom02g15030 pycom02g18630 pycom03g12320 pycom03g18810 pycom03g19250 pycom04g05010 pycom04g06520 pycom04g06680 pycom04g09630 pycom04g09640 pycom05g06850 pycom05g07540 pycom05g08940 pycom06g04300 pycom06g05750 pycom06g06960 pycom06g19690 pycom07g08750 pycom07g10700 pycom07g10910 pycom07g27480 pycom07g27790 pycom07g27800 pycom08g13620 pycom09g03540 pycom09g03550 pycom09g09870 pycom09g13480 pycom09g14360 pycom09g14890 pycom09g14930 pycom09g15760 pycom10g02190 pycom10g05270 pycom10g06810 pycom10g06830 pycom10g08060 pycom10g08520 pycom11g02350 pycom11g14170 pycom11g15050 pycom11g19270 pycom11g20160 pycom11g22420 pycom12g08620 pycom12g08630 pycom12g10440 pycom12g16590 pycom133g00190 pycom13g20730 pycom13g22230 pycom13g22670 pycom13g23230 pycom13g23250 pycom13g24880 pycom13g25300 pycom13g28040 pycom13g29010 pycom14g07570 pycom14g18650 pycom15g04500 pycom15g09310 pycom15g27210 pycom15g30810 pycom15g34920 pycom16g16040 pycom16g17260 pycom16g17940 pycom16g20990 pycom16g23470 pycom16g24160 pycom16g24720 pycom16g25910 pycom16g25920 pycom16g26370 pycom17g03310 pycom17g12670 pycom17g17530 pycom17g25090 pycom17g27300 pycom17g27310 pycom420g00140 pycom420g00160 pycom420g00320 pycom505g00220 pycom520g00740 pycom520g01010 pycom520g01020 pycom576g00060 pycom675g00040
rosa_laevigata RLG00000022630
rosa_multiflora Rmu_co7993280.1_g000001 Rmu_co8054704.1_g000001 Rmu_co8148394.1_g000001 Rmu_co8243015.1_g000001 Rmu_co8272095.1_g000001 Rmu_co8282359.1_g000001 Rmu_co8334783.1_g000001 Rmu_co8404405.1_g000001 Rmu_sc0000161.1_g000030 Rmu_sc0000418.1_g000026 Rmu_sc0000488.1_g000015 Rmu_sc0000706.1_g000041 Rmu_sc0000720.1_g000013 Rmu_sc0000776.1_g000022 Rmu_sc0000948.1_g000017 Rmu_sc0001167.1_g000045 Rmu_sc0001167.1_g000047 Rmu_sc0001211.1_g000054 Rmu_sc0001241.1_g000019 Rmu_sc0001307.1_g000021 Rmu_sc0001438.1_g000043 Rmu_sc0001468.1_g000032 Rmu_sc0001851.1_g000020 Rmu_sc0002026.1_g000023 Rmu_sc0002811.1_g000016 Rmu_sc0002958.1_g000002 Rmu_sc0002958.1_g000003 Rmu_sc0003745.1_g000010 Rmu_sc0004234.1_g000006 Rmu_sc0004234.1_g000008 Rmu_sc0005035.1_g000001 Rmu_sc0005320.1_g000010 Rmu_sc0005866.1_g000006 Rmu_sc0006139.1_g000009 Rmu_sc0006504.1_g000008 Rmu_sc0006695.1_g000049 Rmu_sc0006695.1_g000050 Rmu_sc0006981.1_g000001 Rmu_sc0007108.1_g000012 Rmu_sc0007355.1_g000001 Rmu_sc0007873.1_g000015 Rmu_sc0007961.1_g000003 Rmu_sc0008991.1_g000005 Rmu_sc0009528.1_g000009 Rmu_sc0013299.1_g000003 Rmu_sc0013532.1_g000015 Rmu_sc0015524.1_g000001 Rmu_sc0015793.1_g000001 Rmu_sc0015817.1_g000006 Rmu_sc0015930.1_g000003 Rmu_sc0015930.1_g000006 Rmu_sc0016952.1_g000002 Rmu_sc0016952.1_g000003 Rmu_sc0018715.1_g000003 Rmu_sc0018715.1_g000005 Rmu_sc0023934.1_g000003 Rmu_sc0023989.1_g000002 Rmu_sc0023989.1_g000003 Rmu_sc0028612.1_g000001 Rmu_sc0029049.1_g000001 Rmu_sc0029639.1_g000001 Rmu_sc0035263.1_g000001 Rmu_sc0037892.1_g000001 Rmu_ssc0000170.1_g000024 Rmu_ssc0000233.1_g000057 Rmu_ssc0000259.1_g000055 Rmu_ssc0000259.1_g000057
rosa_roxburghii Rroxscaffold_4G00287780 Rroxscaffold_4G00325290 Rroxscaffold_5G00333910 Rroxscaffold_7G00211350
rosa_rugosa Rorug01G0056300 Rorug04G0149000 Rorug07G0222000
rosa_samantha Rh1AG072900 Rh1CG072000
rosa_wichuraiana Rw0G003630 Rw0G005250 Rw0G020770 Rw0G023770 Rw1G005460 Rw1G005980 Rw1G007190 Rw1G011350 Rw1G022520 Rw1G028660 Rw2G018620 Rw2G019490 Rw4G006910 Rw4G013020 Rw4G023970 Rw5G044650 Rw6G006590 Rw6G012210 Rw6G023750 Rw7G027370 Rw7G027460 Rw7G035570

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 3 cut(s) 206, 233, 514
AclWI GGATC 2 cut(s) 373, 959
AcsI RAATTY 2 cut(s) 394, 578
AcuI CTGAAG 1 cut(s) 249
AfaI GTAC 3 cut(s) 721, 798, 983
AfiI CCNNNNNNNGG 1 cut(s) 1010
AflIII ACRYGT 1 cut(s) 635
AgsI TTSAA 8 cut(s) 134, 260, 422, 431, 619, 631, 905, 1025
AjiI CACGTC 1 cut(s) 638
AjnI CCWGG 1 cut(s) 1003
AloI GAACNNNNNNTCC 2 cut(s) 596, 628
AluBI AGCT 9 cut(s) 244, 298, 407, 427, 458, 591, 661, 848, 1043
AluI AGCT 9 cut(s) 244, 298, 407, 427, 458, 591, 661, 848, 1043
Alw21I GWGCWC 1 cut(s) 663
Alw26I GTCTC 1 cut(s) 734
AlwI GGATC 2 cut(s) 373, 959
Ama87I CYCGRG 2 cut(s) 49, 477
AoxI GGCC 1 cut(s) 207
ApoI RAATTY 2 cut(s) 394, 578
Asp700I GAANNNNTTC 3 cut(s) 138, 623, 1014
AspLEI GCGC 1 cut(s) 161
AspS9I GGNCC 1 cut(s) 208
AsuHPI GGTGA 5 cut(s) 187, 247, 299, 655, 658
AsuII TTCGAA 1 cut(s) 89
AsuNHI GCTAGC 1 cut(s) 1043
AvaI CYCGRG 2 cut(s) 49, 477
BanII GRGCYC 1 cut(s) 663
BbsI GAAGAC 1 cut(s) 153
Bbv12I GWGCWC 1 cut(s) 663
BccI CCATC 1 cut(s) 407
BciT130I CCWGG 1 cut(s) 1005
BclI TGATCA 1 cut(s) 186
BcoDI GTCTC 1 cut(s) 734
BfaI CTAG 6 cut(s) 143, 299, 360, 404, 518, 1044
BfmI CTRYAG 1 cut(s) 696
BisI GCNGC 2 cut(s) 207, 515
BlsI GCNGC 2 cut(s) 208, 516
Bme1390I CCNGG 1 cut(s) 1005
BmeT110I CYCGRG 2 cut(s) 49, 477
BmgBI CACGTC 1 cut(s) 638
BmgT120I GGNCC 1 cut(s) 208
BmiI GGNNCC 1 cut(s) 573
BmrFI CCNGG 1 cut(s) 1005
BmrI ACTGGG 1 cut(s) 214
BmsI GCATC 4 cut(s) 124, 290, 939, 961
BmtI GCTAGC 1 cut(s) 1047
BmuI ACTGGG 1 cut(s) 214
BpiI GAAGAC 1 cut(s) 153
BplI GAGNNNNNCTC 2 cut(s) 814, 846
BpmI CTGGAG 1 cut(s) 1026
Bpu14I TTCGAA 1 cut(s) 89
Bsc4I CCNNNNNNNGG 1 cut(s) 1010
Bse1I ACTGG 2 cut(s) 220, 544
BseBI CCWGG 1 cut(s) 1005
BseGI GGATG 3 cut(s) 274, 399, 1000
BseLI CCNNNNNNNGG 1 cut(s) 1010
BseNI ACTGG 2 cut(s) 220, 544
BseYI CCCAGC 1 cut(s) 591
BshFI GGCC 1 cut(s) 209
BsiHKAI GWGCWC 1 cut(s) 663
BsiHKCI CYCGRG 2 cut(s) 49, 477
BslI CCNNNNNNNGG 1 cut(s) 1010
BsmAI GTCTC 1 cut(s) 734
BsnI GGCC 1 cut(s) 209
BsoBI CYCGRG 2 cut(s) 49, 477
Bsp119I TTCGAA 1 cut(s) 89
Bsp1286I GDGCHC 1 cut(s) 663
Bsp143I GATC 4 cut(s) 186, 365, 811, 964
BspACI CCGC 3 cut(s) 206, 233, 514
BspANI GGCC 1 cut(s) 209
BspHI TCATGA 1 cut(s) 1036
BspLI GGNNCC 1 cut(s) 573
BspOI GCTAGC 1 cut(s) 1047
BspPI GGATC 2 cut(s) 373, 959
BspT104I TTCGAA 1 cut(s) 89
BsrI ACTGG 2 cut(s) 220, 544
BssMI GATC 4 cut(s) 186, 365, 811, 964
Bst2UI CCWGG 1 cut(s) 1005
Bst4CI ACNGT 1 cut(s) 989
Bst6I CTCTTC 2 cut(s) 255, 939
BstBI TTCGAA 1 cut(s) 89
BstC8I GCNNGC 4 cut(s) 689, 693, 935, 1045
BstDEI CTNAG 2 cut(s) 725, 969
BstENI CCTNNNNNAGG 1 cut(s) 1008
BstF5I GGATG 3 cut(s) 274, 399, 1000
BstHHI GCGC 1 cut(s) 161
BstKTI GATC 4 cut(s) 189, 368, 814, 967
BstMAI GTCTC 1 cut(s) 734
BstMBI GATC 4 cut(s) 186, 365, 811, 964
BstMWI GCNNNNNNNGC 1 cut(s) 215
BstNI CCWGG 1 cut(s) 1005
BstSCI CCNGG 1 cut(s) 1003
BstSFI CTRYAG 1 cut(s) 696
BstV2I GAAGAC 1 cut(s) 153
BsuRI GGCC 1 cut(s) 209
BtrI CACGTC 1 cut(s) 638
BtsCI GGATG 3 cut(s) 274, 399, 1000
Cac8I GCNNGC 4 cut(s) 689, 693, 935, 1045
CciI TCATGA 1 cut(s) 1036
CfoI GCGC 1 cut(s) 161
Cfr13I GGNCC 1 cut(s) 208
CseI GACGC 1 cut(s) 926
Csp6I GTAC 3 cut(s) 720, 797, 982
CspCI CAANNNNNGTGG 2 cut(s) 343, 378
CviAII CATG 8 cut(s) 163, 172, 193, 289, 338, 436, 643, 1037
CviQI GTAC 3 cut(s) 720, 797, 982
DdeI CTNAG 2 cut(s) 725, 969
DpnI GATC 4 cut(s) 188, 367, 813, 966
DpnII GATC 4 cut(s) 186, 365, 811, 964
DraI TTTAAA 1 cut(s) 553
Eam1104I CTCTTC 2 cut(s) 255, 939
EarI CTCTTC 2 cut(s) 255, 939
Ecl136II GAGCTC 1 cut(s) 661
Eco24I GRGCYC 1 cut(s) 663
Eco53kI GAGCTC 1 cut(s) 661
Eco57I CTGAAG 1 cut(s) 249
Eco88I CYCGRG 2 cut(s) 49, 477
EcoICRI GAGCTC 1 cut(s) 661
EcoNI CCTNNNNNAGG 1 cut(s) 1008
EcoRI GAATTC 1 cut(s) 578
EcoRII CCWGG 1 cut(s) 1003
EcoT22I ATGCAT 1 cut(s) 954
EcoT38I GRGCYC 1 cut(s) 663
FaeI CATG 8 cut(s) 166, 175, 196, 292, 341, 439, 646, 1040
FalI AAGNNNNNCTT 4 cut(s) 599, 631, 844, 876
FatI CATG 8 cut(s) 162, 171, 192, 288, 337, 435, 642, 1036
FbaI TGATCA 1 cut(s) 186
Fnu4HI GCNGC 2 cut(s) 207, 515
FokI GGATG 3 cut(s) 281, 386, 987
FriOI GRGCYC 1 cut(s) 663
Fsp4HI GCNGC 2 cut(s) 207, 515
FspBI CTAG 6 cut(s) 143, 299, 360, 404, 518, 1044
GlaI GCGC 1 cut(s) 160
GluI GCNGC 2 cut(s) 207, 515
GsaI CCCAGC 1 cut(s) 595
GsuI CTGGAG 1 cut(s) 1026
HaeIII GGCC 1 cut(s) 209
HgaI GACGC 1 cut(s) 926
HhaI GCGC 1 cut(s) 161
Hin1II CATG 8 cut(s) 166, 175, 196, 292, 341, 439, 646, 1040
Hin6I GCGC 1 cut(s) 159
HinP1I GCGC 1 cut(s) 159
HincII GTYRAC 2 cut(s) 225, 537
HindII GTYRAC 2 cut(s) 225, 537
HinfI GANTC 8 cut(s) 86, 139, 152, 320, 389, 747, 774, 781
HphI GGTGA 5 cut(s) 187, 247, 299, 655, 658
Hpy166II GTNNAC 6 cut(s) 101, 225, 307, 537, 561, 722
Hpy188I TCNGA 2 cut(s) 325, 376
Hpy8I GTNNAC 6 cut(s) 101, 225, 307, 537, 561, 722
Hpy99I CGWCG 1 cut(s) 642
HpyAV CCTTC 4 cut(s) 75, 259, 344, 1004
HpyCH4III ACNGT 1 cut(s) 989
HpyCH4IV ACGT 2 cut(s) 491, 637
HpyCH4V TGCA 7 cut(s) 115, 166, 281, 738, 808, 933, 952
HpyF10VI GCNNNNNNNGC 1 cut(s) 215
HpyF3I CTNAG 2 cut(s) 725, 969
HpySE526I ACGT 2 cut(s) 491, 637
Hsp92II CATG 8 cut(s) 166, 175, 196, 292, 341, 439, 646, 1040
HspAI GCGC 1 cut(s) 159
Ksp22I TGATCA 1 cut(s) 186
Kzo9I GATC 4 cut(s) 186, 365, 811, 964
LmnI GCTCC 3 cut(s) 249, 571, 595
LweI GCATC 4 cut(s) 124, 290, 939, 961
MaeI CTAG 6 cut(s) 143, 299, 360, 404, 518, 1044
MaeII ACGT 2 cut(s) 491, 637
MaeIII GTNAC 1 cut(s) 854
MalI GATC 4 cut(s) 188, 367, 813, 966
MboI GATC 4 cut(s) 186, 365, 811, 964
MboII GAAGA 8 cut(s) 103, 158, 209, 250, 272, 363, 619, 956
MhlI GDGCHC 1 cut(s) 663
MluCI AATT 8 cut(s) 110, 129, 276, 394, 523, 578, 755, 920
MlyI GAGTC 4 cut(s) 146, 314, 741, 790
MmeI TCCRAC 1 cut(s) 870
MnlI CCTC 5 cut(s) 23, 45, 486, 816, 1041
Mph1103I ATGCAT 1 cut(s) 954
MroXI GAANNNNTTC 3 cut(s) 138, 623, 1014
MseI TTAA 3 cut(s) 32, 552, 752
MslI CAYNNNNRTG 1 cut(s) 315
MspA1I CMGCKG 1 cut(s) 591
MspR9I CCNGG 1 cut(s) 1005
MvaI CCWGG 1 cut(s) 1005
MwoI GCNNNNNNNGC 1 cut(s) 215
NdeII GATC 4 cut(s) 186, 365, 811, 964
NheI GCTAGC 1 cut(s) 1043
NlaIII CATG 8 cut(s) 166, 175, 196, 292, 341, 439, 646, 1040
NlaIV GGNNCC 1 cut(s) 573
NsiI ATGCAT 1 cut(s) 954
NspV TTCGAA 1 cut(s) 89
PaeR7I CTCGAG 2 cut(s) 49, 477
PagI TCATGA 1 cut(s) 1036
PdmI GAANNNNTTC 3 cut(s) 138, 623, 1014
PfeI GAWTC 4 cut(s) 86, 139, 389, 774
PfoI TCCNGGA 1 cut(s) 1003
PkrI GCNGC 2 cut(s) 208, 516
PleI GAGTC 4 cut(s) 146, 314, 741, 789
PpsI GAGTC 4 cut(s) 146, 314, 741, 789
Psp124BI GAGCTC 1 cut(s) 663
Psp6I CCWGG 1 cut(s) 1003
PspFI CCCAGC 1 cut(s) 591
PspGI CCWGG 1 cut(s) 1003
PspN4I GGNNCC 1 cut(s) 573
PspPI GGNCC 1 cut(s) 208
PspXI VCTCGAGB 1 cut(s) 49
PvuII CAGCTG 1 cut(s) 591
RsaI GTAC 3 cut(s) 721, 798, 983
RsaNI GTAC 3 cut(s) 720, 797, 982
RseI CAYNNNNRTG 1 cut(s) 315
SacI GAGCTC 1 cut(s) 663
SaqAI TTAA 3 cut(s) 32, 552, 752
SatI GCNGC 2 cut(s) 207, 515
Sau3AI GATC 4 cut(s) 186, 365, 811, 964
Sau96I GGNCC 1 cut(s) 208
SchI GAGTC 4 cut(s) 146, 314, 741, 790
ScrFI CCNGG 1 cut(s) 1005
SduI GDGCHC 1 cut(s) 663
SfaNI GCATC 4 cut(s) 124, 290, 939, 961
SfcI CTRYAG 1 cut(s) 696
Sfr274I CTCGAG 2 cut(s) 49, 477
SfuI TTCGAA 1 cut(s) 89
SlaI CTCGAG 2 cut(s) 49, 477
SmiMI CAYNNNNRTG 1 cut(s) 315
SmlI CTYRAG 2 cut(s) 49, 477
SmoI CTYRAG 2 cut(s) 49, 477
Sse9I AATT 8 cut(s) 110, 129, 276, 394, 523, 578, 755, 920
SsiI CCGC 3 cut(s) 206, 233, 514
SspMI CTAG 6 cut(s) 143, 299, 360, 404, 518, 1044
SstI GAGCTC 1 cut(s) 663
StyD4I CCNGG 1 cut(s) 1003
TaaI ACNGT 1 cut(s) 989
TaiI ACGT 2 cut(s) 494, 640
TaqI TCGA 5 cut(s) 50, 89, 478, 732, 873
TaqII GACCGA 2 cut(s) 759, 986
TasI AATT 8 cut(s) 110, 129, 276, 394, 523, 578, 755, 920
TatI WGTACW 1 cut(s) 796
TauI GCSGC 2 cut(s) 209, 517
TfiI GAWTC 4 cut(s) 86, 139, 389, 774
Tru1I TTAA 3 cut(s) 32, 552, 752
Tru9I TTAA 3 cut(s) 32, 552, 752
TspDTI ATGAA 5 cut(s) 326, 399, 571, 694, 1053
TspGWI ACGGA 1 cut(s) 560
XagI CCTNNNNNAGG 1 cut(s) 1008
XapI RAATTY 2 cut(s) 394, 578
XbaI TCTAGA 1 cut(s) 142
XcmI CCANNNNNNNNNTGG 1 cut(s) 169
XhoI CTCGAG 2 cut(s) 49, 477
XmnI GAANNNNTTC 3 cut(s) 138, 623, 1014
XspI CTAG 6 cut(s) 143, 299, 360, 404, 518, 1044
Zsp2I ATGCAT 1 cut(s) 954
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.